My Bibliography

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Skala LE, Philmus B, Mahmud T. Modifications of Protein-Bound Substrates by Trans-Acting Enzymes in Natural Products Biosynthesis. Chembiochem. 2024 Feb 22;:e202400056. doi: 10.1002/cbic.202400056. [Epub ahead of print] Review. PubMed PMID: 38386898; NIHMSID:NIHMS1969932.

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Tehan RM, Dooley CB, Barge EG, McPhail KL, Spatafora JW. New species and new combinations in the genus Paraisaria (Hypocreales, Ophiocordycipitaceae) from the U.S.A., supported by polyphasic analysis. MycoKeys. 2023;100:69-94. doi: 10.3897/mycokeys.100.110959. eCollection 2023. PubMed PMID: 38025585; PubMed Central PMCID: PMC10660154.

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Tsunoda T, Abuelizz HA, Samadi A, Wong CP, Awakawa T, Brumsted CJ, Abe I, Mahmud T. Catalytic Mechanism of Nonglycosidic C-N Bond Formation by the Pseudoglycosyltransferase Enzyme VldE. ACS Catal. 2023 Oct 20;13(20):13369-13382. doi: 10.1021/acscatal.3c02404. Epub 2023 Oct 3. PubMed PMID: 38130475; PubMed Central PMCID: PMC10732325.

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Back D, O'Donnell TJ, Axt KK, Gurr JR, Vanegas JM, Williams PG, Philmus B. Identification, Heterologous Expression, and Characterization of the Tolypodiol Biosynthetic Gene Cluster through an Integrated Approach. ACS Chem Biol. 2023 Aug 18;18(8):1797-1807. doi: 10.1021/acschembio.3c00225. Epub 2023 Jul 24. PubMed PMID: 37487226; PubMed Central PMCID: PMC10529828.

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Eida AA, Samadi A, Tsunoda T, Mahmud T. Modifications of Acyl Carrier Protein-Bound Glycosylated Polyketides in Pactamycin Biosynthesis. Chemistry. 2023 Jun 13;29(33):e202301056. doi: 10.1002/chem.202301056. Epub 2023 Apr 26. PubMed PMID: 37015882; PubMed Central PMCID: PMC10330135.

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Carpenter EL, Wyant MB, Indra A, Ito S, Wakamatsu K, Merrill GF, Moos PJ, Cassidy PB, Leachman SA, Ganguli-Indra G, Indra AK. Thioredoxin Reductase 1 Modulates Pigmentation and Photobiology of Murine Melanocytes in vivo. J Invest Dermatol. 2022 Jul;142(7):1903-1911.e5. doi: 10.1016/j.jid.2021.11.030. Epub 2022 Jan 11. PubMed PMID: 35031135; PubMed Central PMCID: PMC10771865.

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Mattos DR, Wan X, Serrill JD, Nguyen MH, Humphreys IR, Viollet B, Smith AB 3rd, McPhail KL, Ishmael JE. The Marine-Derived Macrolactone Mandelalide A Is an Indirect Activator of AMPK. Mar Drugs. 2022 Jun 27;20(7). doi: 10.3390/md20070418. PubMed PMID: 35877711; PubMed Central PMCID: PMC9320534.

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Gaba RC, Khabbaz RC, Muchiri RN, Morrison JD, Elkhadragy L, Totura WM, Samuelson JP, Whiteley HE, Deaton RL, Nguyen PL, Sverdlov M, Johnson JJ, van Breemen RB, Lokken RP. Conventional versus drug-eluting embolic transarterial chemoembolization with doxorubicin: comparative drug delivery, pharmacokinetics, and treatment response in a rabbit VX2 tumor model. Drug Deliv Transl Res. 2022 May;12(5):1105-1117. doi: 10.1007/s13346-021-00985-8. Epub 2021 Apr 16. PubMed PMID: 33861419.

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Mattos DR, Weinman MA, Wan X, Goodall CP, Serrill JD, McPhail KL, Milovancev M, Bracha S, Ishmael JE. Canine osteosarcoma cells exhibit basal accumulation of multiple chaperone proteins and are sensitive to small molecule inhibitors of GRP78 and heat shock protein function. Cell Stress Chaperones. 2022 May;27(3):223-239. doi: 10.1007/s12192-022-01263-3. Epub 2022 Mar 4. PubMed PMID: 35244890; PubMed Central PMCID: PMC9106791.

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Carpenter EL, Becker AL, Indra AK. NRF2 and Key Transcriptional Targets in Melanoma Redox Manipulation. Cancers (Basel). 2022 Mar 16;14(6). doi: 10.3390/cancers14061531. Review. PubMed PMID: 35326683; PubMed Central PMCID: PMC8946769.

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Back D, Shaffer BT, Loper JE, Philmus B. Untargeted Identification of Alkyne-Containing Natural Products Using Ruthenium-Catalyzed Azide Alkyne Cycloaddition Reactions Coupled to LC-MS/MS. J Nat Prod. 2022 Jan 28;85(1):105-114. doi: 10.1021/acs.jnatprod.1c00798. Epub 2022 Jan 19. PubMed PMID: 35044192; PubMed Central PMCID: PMC8853637.

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van Breemen RB, Muchiri RN, Bates TA, Weinstein JB, Leier HC, Farley S, Tafesse FG. Cannabinoids Block Cellular Entry of SARS-CoV-2 and the Emerging Variants. J Nat Prod. 2022 Jan 28;85(1):176-184. doi: 10.1021/acs.jnatprod.1c00946. Epub 2022 Jan 10. PubMed PMID: 35007072; PubMed Central PMCID: PMC8768006.

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Feinstein DL, Hafner J, van Breemen R, Rubinstein I. Inhaled synthetic cannabinoids laced with long-acting anticoagulant rodenticides: A clear and present worldwide danger. Toxicol Commun. 2022;6(1):28-29. doi: 10.1080/24734306.2022.2025690. Epub 2022 Jan 18. PubMed PMID: 35449825; PubMed Central PMCID: PMC9017862.

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Muchiri RN, Kibitel J, Redick MA, van Breemen RB. Advances in Magnetic Microbead Affinity Selection Screening: Discovery of Natural Ligands to the SARS-CoV-2 Spike Protein. J Am Soc Mass Spectrom. 2022 Jan 5;33(1):181-188. doi: 10.1021/jasms.1c00318. Epub 2021 Dec 23. PubMed PMID: 34939787; PubMed Central PMCID: PMC9429804.

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Muchiri RN, van Breemen RB. Drug discovery from natural products using affinity selection-mass spectrometry. Drug Discov Today Technol. 2021 Dec;40:59-63. doi: 10.1016/j.ddtec.2021.10.005. Epub 2021 Oct 21. Review. PubMed PMID: 34916024; PubMed Central PMCID: PMC8688860.

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Molina J, Nikolic D, Jeevarathanam JR, Abzalimov R, Park EJ, Pedales R, Mojica EE, Tandang D, McLaughlin W, Wallick K, Adams J, Novy A, Pell SK, van Breemen RB, Pezzuto JM. Living with a giant, flowering parasite: metabolic differences between Tetrastigma loheri Gagnep. (Vitaceae) shoots uninfected and infected with Rafflesia (Rafflesiaceae) and potential applications for propagation. Planta. 2021 Nov 29;255(1):4. doi: 10.1007/s00425-021-03787-x. PubMed PMID: 34841446; PubMed Central PMCID: PMC8627921.

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Becker AL, Carpenter EL, Slominski AT, Indra AK. The Role of the Vitamin D Receptor in the Pathogenesis, Prognosis, and Treatment of Cutaneous Melanoma. Front Oncol. 2021;11:743667. doi: 10.3389/fonc.2021.743667. eCollection 2021. Review. PubMed PMID: 34692525; PubMed Central PMCID: PMC8526885.

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Fança-Berthon P, Tenon M, Bouter-Banon SL, Manfré A, Maudet C, Dion A, Chevallier H, Laval J, van Breemen RB. Pharmacokinetics of a Single Dose of Turmeric Curcuminoids Depends on Formulation: Results of a Human Crossover Study. J Nutr. 2021 Jul 1;151(7):1802-1816. doi: 10.1093/jn/nxab087. PubMed PMID: 33877323; PubMed Central PMCID: PMC8245892.

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Schmid R, Petras D, Nothias LF, Wang M, Aron AT, Jagels A, Tsugawa H, Rainer J, Garcia-Aloy M, Dührkop K, Korf A, Pluskal T, Kameník Z, Jarmusch AK, Caraballo-Rodríguez AM, Weldon KC, Nothias-Esposito M, Aksenov AA, Bauermeister A, Albarracin Orio A, Grundmann CO, Vargas F, Koester I, Gauglitz JM, Gentry EC, Hövelmann Y, Kalinina SA, Pendergraft MA, Panitchpakdi M, Tehan R, Le Gouellec A, Aleti G, Mannochio Russo H, Arndt B, Hübner F, Hayen H, Zhi H, Raffatellu M, Prather KA, Aluwihare LI, Böcker S, McPhail KL, Humpf HU, Karst U, Dorrestein PC. Ion identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment. Nat Commun. 2021 Jun 22;12(1):3832. doi: 10.1038/s41467-021-23953-9. PubMed PMID: 34158495; PubMed Central PMCID: PMC8219731.

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van Breemen RB, Hafner JW, Nosal DG, Feinstein DL, Rubinstein I. Unmet clinical laboratory need in patients hospitalized for acute poisoning from long-acting anticoagulant rodenticides. Toxicol Commun. 2021;5(1):93-96. doi: 10.1080/24734306.2021.1925444. Epub 2021 Jun 4. PubMed PMID: 34458660; PubMed Central PMCID: PMC8388241.

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Heller GJ, Marshall MS, Issa Y, Marshall JN, Nguyen D, Rue E, Pathmasiri KC, Domowicz MS, van Breemen RB, Tai LM, Cologna SM, Crocker SJ, Givogri MI, Sands MS, Bongarzone ER. Waning efficacy in a long-term AAV-mediated gene therapy study in the murine model of Krabbe disease. Mol Ther. 2021 May 5;29(5):1883-1902. doi: 10.1016/j.ymthe.2021.01.026. Epub 2021 Jan 26. PubMed PMID: 33508430; PubMed Central PMCID: PMC8116612.

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Muchiri RN, van Breemen RB. Single Laboratory Validation of UHPLC-MS/MS Assays for Six Milk Thistle Flavonolignans in Human Serum. J AOAC Int. 2021 Mar 5;104(1):232-238. doi: 10.1093/jaoacint/qsaa110. PubMed PMID: 33251548; PubMed Central PMCID: PMC7892635.

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Nosal DG, van Breemen RB, Haffner JW, Rubinstein I, Feinstein DL. Brodifacoum pharmacokinetics in acute human poisoning: implications for estimating duration of vitamin K therapy. Toxicol Commun. 2021;5(1):69-72. doi: 10.1080/24734306.2021.1887637. Epub 2021 Mar 1. PubMed PMID: 33768191; PubMed Central PMCID: PMC7990043.

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Nosal DG, Feinstein DL, van Breemen RB. Chiral liquid chromatography-tandem mass spectrometry analysis of superwarfarin rodenticide stereoisomers - Bromadiolone, difenacoum and brodifacoum - In human plasma. J Chromatogr B Analyt Technol Biomed Life Sci. 2021 Feb 15;1165:122529. doi: 10.1016/j.jchromb.2021.122529. Epub 2021 Jan 7. PubMed PMID: 33486217; PubMed Central PMCID: PMC7875153.

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Noviany N, Samadi A, Carpenter EL, Abugrain ME, Hadi S, Purwitasari N, Indra G, Indra A, Mahmud T. Structural revision of sesbagrandiflorains A and B, and synthesis and biological evaluation of 6-methoxy-2-arylbenzofuran derivatives. J Nat Med. 2021 Jan;75(1):66-75. doi: 10.1007/s11418-020-01445-2. Epub 2020 Aug 18. PubMed PMID: 32809097; PubMed Central PMCID: PMC7791000.

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Kazemi S, Kawaguchi S, Badr CE, Mattos DR, Ruiz-Saenz A, Serrill JD, Moasser MM, Dolan BP, Paavilainen VO, Oishi S, McPhail KL, Ishmael JE. Targeting of HER/ErbB family proteins using broad spectrum Sec61 inhibitors coibamide A and apratoxin A. Biochem Pharmacol. 2021 Jan;183:114317. doi: 10.1016/j.bcp.2020.114317. Epub 2020 Nov 3. PubMed PMID: 33152346; PubMed Central PMCID: PMC7781188.

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Muchiri RN, van Breemen RB. Affinity selection-mass spectrometry for the discovery of pharmacologically active compounds from combinatorial libraries and natural products. J Mass Spectrom. 2021;56(5):e4647. doi: 10.1002/jms.4647. Epub 2020 Sep 21. Review. PubMed PMID: 32955158.

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Kornfuehrer T, Romanowski S, de Crécy-Lagard V, Hanson AD, Eustáquio AS. An Enzyme Containing the Conserved Domain of Unknown Function DUF62 Acts as a Stereoselective (R(s) ,S(c) )-S-Adenosylmethionine Hydrolase. Chembiochem. 2020 Dec 11;21(24):3495-3499. doi: 10.1002/cbic.202000349. Epub 2020 Sep 16. PubMed PMID: 32776704; PubMed Central PMCID: PMC7736106.

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Chen L, Choi J, Leonard SW, Banuvar S, Barengolts E, Viana M, Chen SN, Pauli GF, Bolton JL, van Breemen RB. No Clinically Relevant Pharmacokinetic Interactions of a Red Clover Dietary Supplement with Cytochrome P450 Enzymes in Women. J Agric Food Chem. 2020 Nov 25;68(47):13929-13939. doi: 10.1021/acs.jafc.0c05856. Epub 2020 Nov 16. PubMed PMID: 33197178; PubMed Central PMCID: PMC8071351.

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Tranter D, Paatero AO, Kawaguchi S, Kazemi S, Serrill JD, Kellosalo J, Vogel WK, Richter U, Mattos DR, Wan X, Thornburg CC, Oishi S, McPhail KL, Ishmael JE, Paavilainen VO. Coibamide A Targets Sec61 to Prevent Biogenesis of Secretory and Membrane Proteins. ACS Chem Biol. 2020 Aug 21;15(8):2125-2136. doi: 10.1021/acschembio.0c00325. Epub 2020 Jul 20. PubMed PMID: 32608972; PubMed Central PMCID: PMC7497630.

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Feinstein DL, Nosal DG, Ramanathan S, Zhou J, Chen L, Hershow RC, van Breemen RB, Wright E, Hafner JW, Rubinstein I. Effects of vitamin K1 treatment on plasma concentrations of long-acting anticoagulant rodenticide enantiomers following inhalation of contaminated synthetic cannabinoids. Clin Toxicol (Phila). 2020 Jul;58(7):716-724. doi: 10.1080/15563650.2019.1687903. Epub 2019 Nov 18. PubMed PMID: 31736367; PubMed Central PMCID: PMC7583456.

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Muchiri RN, van Breemen RB. Single-Laboratory Validation of UHPLC-MS/MS Assays for Red Clover Isoflavones in Human Serum and Dietary Supplements. J AOAC Int. 2020 Jul 1;103(4):1160-1166. doi: 10.1093/jaoacint/qsaa033. PubMed PMID: 33241325; PubMed Central PMCID: PMC7691648.

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Guo B, Zhao M, Wu Z, Onakpa MM, Burdette JE, Che CT. 19-nor-pimaranes from Icacina trichantha. Fitoterapia. 2020 Jul;144:104612. doi: 10.1016/j.fitote.2020.104612. Epub 2020 May 11. PubMed PMID: 32437735; PubMed Central PMCID: PMC7384768.

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Aron AT, Gentry EC, McPhail KL, Nothias LF, Nothias-Esposito M, Bouslimani A, Petras D, Gauglitz JM, Sikora N, Vargas F, van der Hooft JJJ, Ernst M, Kang KB, Aceves CM, Caraballo-Rodríguez AM, Koester I, Weldon KC, Bertrand S, Roullier C, Sun K, Tehan RM, Boya P CA, Christian MH, Gutiérrez M, Ulloa AM, Tejeda Mora JA, Mojica-Flores R, Lakey-Beitia J, Vásquez-Chaves V, Zhang Y, Calderón AI, Tayler N, Keyzers RA, Tugizimana F, Ndlovu N, Aksenov AA, Jarmusch AK, Schmid R, Truman AW, Bandeira N, Wang M, Dorrestein PC. Reproducible molecular networking of untargeted mass spectrometry data using GNPS. Nat Protoc. 2020 Jun;15(6):1954-1991. doi: 10.1038/s41596-020-0317-5. Epub 2020 May 13. PubMed PMID: 32405051.

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Nosal DG, Feinstein DL, Chen L, van Breemen RB. Separation and Quantification of Superwarfarin Rodenticide Diastereomers-Bromadiolone, Difenacoum, Flocoumafen, Brodifacoum, and Difethialone-in Human Plasma. J AOAC Int. 2020 Jun 1;103(3):770-778. doi: 10.1093/jaoacint/qsaa007. PubMed PMID: 33241367; PubMed Central PMCID: PMC7372953.

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van Breemen RB, Chen L, Tonsing-Carter A, Banuvar S, Barengolts E, Viana M, Chen SN, Pauli GF, Bolton JL. Pharmacokinetic Interactions of a Hop Dietary Supplement with Drug Metabolism in Perimenopausal and Postmenopausal Women. J Agric Food Chem. 2020 May 6;68(18):5212-5220. doi: 10.1021/acs.jafc.0c01077. Epub 2020 Apr 24. PubMed PMID: 32285669; PubMed Central PMCID: PMC8071352.

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Yu Y, Pauli GF, Huang L, Gan LS, van Breemen RB, Li D, McAlpine JB, Lankin DC, Chen SN. Classification of Flavonoid Metabolomes via Data Mining and Quantification of Hydroxyl NMR Signals. Anal Chem. 2020 Apr 7;92(7):4954-4962. doi: 10.1021/acs.analchem.9b05084. Epub 2020 Mar 26. PubMed PMID: 32108467; PubMed Central PMCID: PMC7442116.

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Chen L, van Breemen RB. Validation of a sensitive UHPLC-MS/MS method for cytochrome P450 probe substrates caffeine, tolbutamide, dextromethorphan, and alprazolam in human serum reveals drug contamination of serum used for research. J Pharm Biomed Anal. 2020 Feb 5;179:112983. doi: 10.1016/j.jpba.2019.112983. Epub 2019 Nov 10. PubMed PMID: 31744669; PubMed Central PMCID: PMC6943185.

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Rue EA, Glinski JA, Glinski VB, van Breemen RB. Ion mobility-mass spectrometry for the separation and analysis of procyanidins. J Mass Spectrom. 2020 Feb;55(2):e4377. doi: 10.1002/jms.4377. Epub 2019 Jun 18. PubMed PMID: 31144405; PubMed Central PMCID: PMC7531352.

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van Breemen RB, Hathout Y, Fabris D. Catherine Fenselau: A distinguished career dedicated to biomedical mass spectrometry. J Mass Spectrom. 2020 Feb;55(2):e4500. doi: 10.1002/jms.4500. PubMed PMID: 32073193.

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van Breemen RB. Role of Mass Spectrometry in Establishing Safety and Efficacy of Botanical Dietary Supplements. Clin Mass Spectrom. 2020 Jan;15:25-28. doi: 10.1016/j.clinms.2019.12.001. Epub 2020 Jan 7. PubMed PMID: 32258409; PubMed Central PMCID: PMC7135424.

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Fang JB, Nikolić D, Lankin DC, Simmler C, Chen SN, Ramos Alvarenga RF, Liu Y, Pauli GF, van Breemen RB. Formation of (2R)- and (2S)-8-Prenylnaringenin Glucuronides by Human UDP-Glucuronosyltransferases. J Agric Food Chem. 2019 Oct 23;67(42):11650-11656. doi: 10.1021/acs.jafc.9b04657. Epub 2019 Oct 11. PubMed PMID: 31554401; PubMed Central PMCID: PMC6942495.

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Rasin A, Devgun JM, Nosal DG, Meehan TJ, van Breemen RB, Thompson TM. Coagulopathy After Synthetic Cannabinoid Use: A Case Report. Ann Intern Med. 2019 Oct 15;171(8):595-596. doi: 10.7326/L19-0321. Epub 2019 Aug 27. PubMed PMID: 31450243.

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Grzelak EM, Choules MP, Gao W, Cai G, Wan B, Wang Y, McAlpine JB, Cheng J, Jin Y, Lee H, Suh JW, Pauli GF, Franzblau SG, Jaki BU, Cho S. Strategies in anti-Mycobacterium tuberculosis drug discovery based on phenotypic screening. J Antibiot (Tokyo). 2019 Oct;72(10):719-728. doi: 10.1038/s41429-019-0205-9. Epub 2019 Jul 11. Review. PubMed PMID: 31292530; PubMed Central PMCID: PMC6760628.

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Bolton JL, Dunlap TL, Hajirahimkhan A, Mbachu O, Chen SN, Chadwick L, Nikolic D, van Breemen RB, Pauli GF, Dietz BM. Correction to The Multiple Biological Targets of Hops and Bioactive Compounds. Chem Res Toxicol. 2019 Aug 19;32(8):1732. doi: 10.1021/acs.chemrestox.9b00300. Epub 2019 Aug 8. PubMed PMID: 31392882.

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Cleary JL, Luu GT, Pierce EC, Dutton RJ, Sanchez LM. BLANKA: an Algorithm for Blank Subtraction in Mass Spectrometry of Complex Biological Samples. J Am Soc Mass Spectrom. 2019 Aug;30(8):1426-1434. doi: 10.1007/s13361-019-02185-8. Epub 2019 Apr 16. PubMed PMID: 30993641; PubMed Central PMCID: PMC6675636.

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Wolf NM, Lee H, Choules MP, Pauli GF, Phansalkar R, Anderson JR, Gao W, Ren J, Santarsiero BD, Lee H, Cheng J, Jin YY, Ho NA, Duc NM, Suh JW, Abad-Zapatero C, Cho S. High-Resolution Structure of ClpC1-Rufomycin and Ligand Binding Studies Provide a Framework to Design and Optimize Anti-Tuberculosis Leads. ACS Infect Dis. 2019 Jun 14;5(6):829-840. doi: 10.1021/acsinfecdis.8b00276. Epub 2019 May 3. PubMed PMID: 30990022; PubMed Central PMCID: PMC6657506.

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Feinstein DL, Gierzal K, Iqbal A, Kalinin S, Ripper R, Lindeblad M, Zahkarov A, Lyubimov A, van Breemen R, Weinberg G, Rubinstein I. The relative toxicity of brodifacoum enantiomers. Toxicol Lett. 2019 May 15;306:61-65. doi: 10.1016/j.toxlet.2019.02.011. Epub 2019 Feb 16. PubMed PMID: 30779948; PubMed Central PMCID: PMC6408973.

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Choules MP, Wolf NM, Lee H, Anderson JR, Grzelak EM, Wang Y, Ma R, Gao W, McAlpine JB, Jin YY, Cheng J, Lee H, Suh JW, Duc NM, Paik S, Choe JH, Jo EK, Chang CL, Lee JS, Jaki BU, Pauli GF, Franzblau SG, Cho S. Rufomycin Targets ClpC1 Proteolysis in Mycobacterium tuberculosis and M. abscessus. Antimicrob Agents Chemother. 2019 Mar;63(3). doi: 10.1128/AAC.02204-18. Print 2019 Mar. PubMed PMID: 30602512; PubMed Central PMCID: PMC6395927.

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Rubinstein I, van Breemen R, Nosal DG, Weinberg G, Hershow RC, Feinstein DL. Should Cytochrome P450 Inducers be Used to Accelerate Clearance of Brodifacoum from Poisoned Patients?. Drugs R D. 2019 Mar;19(1):67-71. doi: 10.1007/s40268-019-0261-4. PubMed PMID: 30689138; PubMed Central PMCID: PMC6380967.